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Zinc-beta-lactamase L1 from stenotrophomonas maltophilia (Cu-substituted form)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SML PDB ENTRY 1SML
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 280 AS, pH 7.50, VAPOR DIFFUSION, HANGING DROP, temperature 280K
Crystal Properties Matthews coefficient Solvent content 2.5 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.35 α = 90 b = 105.35 β = 90 c = 196.28 γ = 120
Symmetry Space Group P 65 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARRESEARCH 2005-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.979667 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.85 46.42 99.9 0.076 0.076 9.4 7.1 55212 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.95 99.9 0.445 0.445 1.8 7.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1SML 1.85 46.37 2 52737 2821 99.96 0.16474 0.16311 0.175 0.19535 0.1727 RANDOM 14.95
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.03 -0.01 -0.03 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.622 r_scangle_it 3.659 r_scbond_it 2.276 r_angle_refined_deg 1.457 r_mcangle_it 1.399 r_angle_other_deg 0.829 r_mcbond_it 0.786 r_nbd_refined 0.346 r_symmetry_vdw_other 0.299 r_nbd_other 0.254
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.622 r_scangle_it 3.659 r_scbond_it 2.276 r_angle_refined_deg 1.457 r_mcangle_it 1.399 r_angle_other_deg 0.829 r_mcbond_it 0.786 r_nbd_refined 0.346 r_symmetry_vdw_other 0.299 r_nbd_other 0.254 r_xyhbond_nbd_refined 0.229 r_symmetry_hbond_refined 0.166 r_symmetry_vdw_refined 0.143 r_chiral_restr 0.089 r_nbtor_other 0.082 r_metal_ion_refined 0.063 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4002 Nucleic Acid Atoms Solvent Atoms 447 Heterogen Atoms 76
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling CCP4 model building REFMAC refinement CCP4 data scaling CCP4 phasing